Detecting hybridization in wild (Coturnix c. coturnix) and domesticated (Coturnix c. japonica) quail populations

Barilani, Marina; Derégnaucourt, Sébastien; Gallego, S.; Galli, L.; Mucci, Nadia; Piombo, R.; Puigcerver, M.; Rimondi, Silvia; Rodríguez‐Teijeiro, José Domingo; Spano, Stefano; Randi, Ettore

doi:10.1016/j.biocon.2005.06.027

Cited by 82 publications

(109 citation statements)

References 24 publications

Supporting

Mentioning

100

Contrasting

Unclassified

Order By: Relevance

“…STRUCTURE uses multilocus genotype data and is based on a clustering algorithm that assigns individuals to populations. Early studies used microsatellites, often in combination with mitochondrial markers (e.g., Barilani et al 2005). The rapid progress in sequencing techniques introduced the application of SNPs and other genome-wide markers to this method (Saetre et al 2003;Kraus et al 2012).…”

Section: Detecting Hybridsmentioning

confidence: 99%

Avian introgression in the genomic era

et al. 2017

View full text Add to dashboard Cite

Introgression, the incorporation of genetic material from one (sub)species into the gene pool of another by means of hybridization and backcrossing, is a common phenomenon in birds and can provide important insights into the speciation process. In the last decade, the toolkit for studying introgression has expanded together with the development of molecular markers. In this review, we explore how genomic data, the most recent step in this methodological progress, impacts different aspects in the study of avian introgression. First, the detection of hybrids and backcrosses has improved dramatically. The most widely used software package is STRUCTURE. Phylogenetic discordance (i.e. different loci resulting in discordant gene trees) is another means for the detection of introgression, although it should be regarded as a starting point for further analyses, not as a definitive proof of introgression. Specifically, disentangling introgression from other biological processes, such as incomplete lineage sorting, remains a challenging endeavour, although new techniques, such as the D-statistic, are being developed. In addition, phylogenetics might require a shift from trees to networks. Second, the study of hybrid zones by means of geographical or genomic cline analysis has led to important insights into the complex interplay between hybridization and speciation. However, because each hybrid zone study is just a single snapshot of a complex and continuously changing interaction, hybrid zones should be studied across different temporal and/or spatial scales. A third powerful tool is the genome scan. The debate on which evolutionary processes underlie the genomic landscape is still ongoing, as is the question whether loci involved in reproductive isolation cluster together in 'islands of speciation' or whether they are scattered throughout the genome. Exploring genomic landscapes across the avian tree of life will be an exciting field for further research. Finally, the findings from these different methods should be incorporated into specific speciation scenarios, which can consequently be tested using a modelling approach. All in all, this genomic perspective on avian hybridization and speciation will further our understanding in evolution in general.

show abstract

Section: Detecting Hybridsmentioning

confidence: 99%

Avian introgression in the genomic era

et al. 2017

View full text Add to dashboard Cite

show abstract

“…Some examples of admixture and introgression have been described in birds (quail, Barilani et al 2005; partridges, Negro et al 2001), fishes (grayling, Susnik et al 2004;trout, Boyer et al 2008), bovine (cattle, Padilla et al 2009;bison, Freese et al 2007;Halbert and Derr 2007) and carnivores (wolves, Miller et al 2003;cats, Beaumont et al 2001).…”

Section: Introductionmentioning

confidence: 99%

Removing exogenous information using pedigree data

Amador¹,

Toro²,

Fernández³

2011

Conserv Genet

View full text Add to dashboard Cite

Management of certain populations requires the preservation of its pure genetic background. When, for different reasons, undesired alleles are introduced, the original genetic conformation must be recovered. The present study tested, through computer simulations, the power of recovery (the ability for removing the foreign information) from genealogical data. Simulated scenarios comprised different numbers of exogenous individuals taking part of the founder population and different numbers of unmanaged generations before the removal program started. Strategies were based on variables arising from classical pedigree analyses such as founders' contribution and partial coancestry. The efficiency of the different strategies was measured as the proportion of native genetic information remaining in the population. Consequences on the inbreeding and coancestry levels of the population were also evaluated. Minimisation of the exogenous founders' contributions was the most powerful method, removing the largest amount of genetic information in just one generation. However, as a side effect, it led to the highest values of inbreeding. Scenarios with a large amount of initial exogenous alleles (i.e. high percentage of non native founders), or many generations of mixing became very difficult to recover, pointing out the importance of being careful about introgression events in populations where these are undesired.

show abstract

“…These largescale releases can lead to loss of genetic diversity, breakdown of adaptations and change in the population genetic structure (Eldridge and Naish, 2007;Laikre et al, 2010;Marie et al, 2010). Specifically, several authors have pointed out that restocking with domestic Japanese quails and hybrids can pose serious threats to the genetic integrity and survival of common quails (Guyomarc'h, 2003;Barilani et al, 2005;Chazara et al, 2006Chazara et al, , 2010Puigcerver et al, 2007). Their interbreeding can lead to introgression of maladaptive domestic Japanese quail alleles into the common quail population, potentially leading to alterations or loss of migratory behavior, and a decline in fitness in native quails (Guyomarc'h, 2003).…”

Section: Introductionmentioning

confidence: 99%

Detecting slow introgression of invasive alleles in an extensively restocked game bird

et al. 2014

View full text Add to dashboard Cite

Interbreeding of two species in the wild implies introgression of alleles from one species into the other only when admixed individuals survive and successfully backcross with the parental species. Consequently, estimating the proportion of first generation hybrids in a population may not inform about the evolutionary impact of hybridization. Samples obtained over a long time span may offer a more accurate view of the spreading of introgressed alleles in a species' gene pool. Common quail (Coturnix coturnix) populations in Europe have been restocked extensively with farm quails of hybrid origin (crosses with Japanese quails, C. japonica). We genetically monitored a common quail population over 15 years to investigate whether genetic introgression is occurring and used simulations to investigate our power to detect it. Our results revealed that some introgression has occurred, but we did not observe a significant increase over time in the proportion of admixed individuals. However, simulations showed that the degree of admixture may be larger than anticipated due to the limited power of analyses over a short time span, and that observed data was compatible with a low rate of introgression, probably resulting from reduced fitness of admixed individuals. Simulations predicted this could result in extensive admixture in the near future.

show abstract

Detecting hybridization in wild (Coturnix c. coturnix) and domesticated (Coturnix c. japonica) quail populations

Cited by 82 publications

References 24 publications

Avian introgression in the genomic era

Avian introgression in the genomic era

Removing exogenous information using pedigree data

Detecting slow introgression of invasive alleles in an extensively restocked game bird

Contact Info

Product

Resources

About